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Fabrèges D, Corominas-Murtra B, Moghe P, Kickuth A, Ichikawa T, Iwatani C, Tsukiyama T, Daniel N, Gering J, Stokkermans A, Wolny A, Kreshuk A, Duranthon V, Uhlman V, Hannezo E, Hiiragi T. Temporal variability and cell mechanics control robustness in mammalian embryogenesis. Science 2024; 386:eadh1145. [PMID: 39388574 DOI: 10.1126/science.adh1145] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2023] [Revised: 10/02/2023] [Accepted: 08/20/2024] [Indexed: 10/12/2024]
Abstract
How living systems achieve precision in form and function despite their intrinsic stochasticity is a fundamental yet ongoing question in biology. We generated morphomaps of preimplantation embryogenesis in mouse, rabbit, and monkey embryos, and these morphomaps revealed that although blastomere divisions desynchronized passively, 8-cell embryos converged toward robust three-dimensional shapes. Using topological analysis and genetic perturbations, we found that embryos progressively changed their cellular connectivity to a preferred topology, which could be predicted by a physical model in which actomyosin contractility and noise facilitate topological transitions, lowering surface energy. This mechanism favored regular embryo packing and promoted a higher number of inner cells in the 16-cell embryo. Synchronized division reduced embryo packing and generated substantially more misallocated cells and fewer inner-cell-mass cells. These findings suggest that stochasticity in division timing contributes to robust patterning.
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Affiliation(s)
- Dimitri Fabrèges
- Hubrecht Institute, Utrecht, Netherlands
- Developmental Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany
| | | | - Prachiti Moghe
- Hubrecht Institute, Utrecht, Netherlands
- Developmental Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany
| | - Alison Kickuth
- Developmental Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany
| | - Takafumi Ichikawa
- Institute for the Advanced Study of Human Biology (WPI-ASHBi), Kyoto University, Kyoto, Japan
- Department of Developmental Biology, Graduate School of Medicine, Kyoto University, Kyoto, Japan
| | - Chizuru Iwatani
- Research Center for Animal Life Science, Shiga University of Medical Science, Shiga, Japan
| | - Tomoyuki Tsukiyama
- Institute for the Advanced Study of Human Biology (WPI-ASHBi), Kyoto University, Kyoto, Japan
- Research Center for Animal Life Science, Shiga University of Medical Science, Shiga, Japan
| | - Nathalie Daniel
- UVSQ, INRAE, BREED, Paris-Saclay University, Jouy-en-Josas, France
| | | | | | - Adrian Wolny
- Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, Germany
| | - Anna Kreshuk
- Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, Germany
| | - Véronique Duranthon
- UVSQ, INRAE, BREED, Paris-Saclay University, Jouy-en-Josas, France
- École Nationale Vétérinaire d'Alfort, BREED, Maisons-Alfort, France
| | | | - Edouard Hannezo
- Institute of Science and Technology Austria, Klosterneuburg, Austria
| | - Takashi Hiiragi
- Hubrecht Institute, Utrecht, Netherlands
- Developmental Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany
- Institute for the Advanced Study of Human Biology (WPI-ASHBi), Kyoto University, Kyoto, Japan
- Department of Developmental Biology, Graduate School of Medicine, Kyoto University, Kyoto, Japan
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Poyatos JF. Design principles of multi-map variation in biological systems. Phys Biol 2024; 21:043001. [PMID: 38949447 DOI: 10.1088/1478-3975/ad5d6c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2024] [Accepted: 07/01/2024] [Indexed: 07/02/2024]
Abstract
Complexity in biology is often described using a multi-map hierarchical architecture, where the genotype, representing the encoded information, is mapped to the functional level, known as the phenotype, which is then connected to a latent phenotype we refer to as fitness. This underlying architecture governs the processes driving evolution. Furthermore, natural selection, along with other neutral forces, can, in turn, modify these maps. At each level, variation is observed. Here, I propose the need to establish principles that can aid in understanding the transformation of variation within this multi-map architecture. Specifically, I will introduce three, related to the presence of modulators, constraints, and the modular channeling of variation. By comprehending these design principles in various biological systems, we can gain better insights into the mechanisms underlying these maps and how they ultimately contribute to evolutionary dynamics.
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Affiliation(s)
- Juan F Poyatos
- Logic of Genomic Systems Lab (CNB-CSIC), Madrid 28049, Spain
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Worlitzer VM, Ariel G, Lazar EA. Pair correlation function based on Voronoi topology. Phys Rev E 2023; 108:064115. [PMID: 38243531 DOI: 10.1103/physreve.108.064115] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2022] [Accepted: 11/09/2023] [Indexed: 01/21/2024]
Abstract
The pair correlation function (PCF) has proven an effective tool for analyzing many physical systems due to its simplicity and its applicability for simulated and experimental data. However, as an averaged quantity, the PCF can fail to capture subtle structural differences in particle arrangements, even when those differences can have a major impact on system properties. Here, we use Voronoi topology to introduce a discrete version of the PCF that highlights local interparticle topological configurations. The advantages of the Voronoi PCF are demonstrated in several examples including crystalline, hyperuniform, and active systems showing clustering and giant number fluctuations.
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Affiliation(s)
- Vasco M Worlitzer
- Department of Mathematics, Bar Ilan University, Ramat Gan 5290002, Israel
| | - Gil Ariel
- Department of Mathematics, Bar Ilan University, Ramat Gan 5290002, Israel
| | - Emanuel A Lazar
- Department of Mathematics, Bar Ilan University, Ramat Gan 5290002, Israel
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